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Circle-seq of skin samples from SD rats irradiated with different fractional electron beam radiation

ABSTRACT: Circle-seq of skin samples from SD rats irradiated with different fractional electron beam radiation

PROVIDER: PRJNA904304 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR22379429_1.fastq.gz	Fastqsanger.gz
	SRR22379429_2.fastq.gz	Fastqsanger.gz
	SRR22379430_1.fastq.gz	Fastqsanger.gz
	SRR22379430_2.fastq.gz	Fastqsanger.gz
	SRR22379431_1.fastq.gz	Fastqsanger.gz

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Circle-seq of skin samples from SD rats irradiated with different fractional electron beam radiation

Project description:To investigate circular DNA alterations in response to radiation in skin and further study the function of circular DNA

2023-06-16 | GSE218553 | GEO

TMT-based quantitative proteomic and scanning electron microscopy reveals biological and morphological changes of Staphylococcus aureus irradiated by electron beam

Project description:Electron beam irradiation is an efficient cold sterilization technique that has been widely utilized in food preservation. To understand the biological and morphological changes of microorganisms by electron beam irradiation, the D10 value, growth curve, and morphological characterization by scanning electron microscope (SEM) of Staphylococcus aureus were studied. Furthermore, Tandem mass tag (TMT)-based quantitative proteomic was performed to investigate the responses of Staphylococcus aureus to electron beam. The results showed that electron beam sensitized the irradiated strain and prolonged the lag phase of bacterial growth. There were 53, 96, 1055, and 431 differentially expressed proteins (DEPs) detected in 1-kGy irradiated strain (0 h-1-kGy), 2-kGy irradiated strain (0 h-2-kGy), 1-kGy irradiated strain after 24 h cultivation (24 h-1-kGy), and 2-kGy irradiated strain after 24 h cultivation (24 h-2-kGy) groups compared to unirradiated strain (control) group, respectively. Most of DEPs involved in DNA repair were found to be up-regulated. However, DEPs involved in biofilm formation and staphylococcal enterotoxin production were down-regulated. There were no noticeable morphological changes observed in irradiated S. aureus. These findings provided valuable information in the responses of S. aureus to electron beam irradiation, leading to a better understanding of the effects of electron beam irradiation on food pathogens.

2023-03-31 | PXD041285 |

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LET-dependent change in rice gene expression profile after heavy-ion beam irradiation [time]

Project description:Linear energy transfer (LET) is an important factor affecting several aspects of the irradiation effect, e.g. cell survival and mutation frequency, making the heavy-ion beam an effective mutagen. To study the mechanisms behind LET-dependent effects, expression profiling was performed after heavy-ion beam irradiation of imbibed rice seeds. Array-based experiments at three time points (0.5, 1, 2 h after the irradiation) revealed that the number of up- or down-regulated genes was highest 2 h after irradiation. Array-based experiments with four different LETs at 2 h after irradiation identified LET-independent regulated genes that were up/down-regulated regardless of the value of LET; LET-dependently regulated genes, whose expression level increased with the rise of LET value, were also identified. Oryza sativa L. 'Nipponbare' seeds were imbibed for 3 days. The seeds were irradiated with 22.5 or 50 keV/Î¼m C-ion at a dose of 15 Gy. Gene expressions of irradiated and unirradiated embryos were measured at 0.5, 1, and 2 hours after irradiation. Three independent experiments were performed at each time and LET.

2016-07-01 | E-GEOD-78997 | biostudies-arrayexpress

LET-dependent change in rice gene expression profile after heavy-ion beam irradiation [LET]

Project description:Linear energy transfer (LET) is an important factor affecting several aspects of the irradiation effect, e.g. cell survival and mutation frequency, making the heavy-ion beam an effective mutagen. To study the mechanisms behind LET-dependent effects, expression profiling was performed after heavy-ion beam irradiation of imbibed rice seeds. Array-based experiments at three time points (0.5, 1, 2 h after the irradiation) revealed that the number of up- or down-regulated genes was highest 2 h after irradiation. Array-based experiments with four different LETs at 2 h after irradiation identified LET-independent regulated genes that were up/down-regulated regardless of the value of LET; LET-dependently regulated genes, whose expression level increased with the rise of LET value, were also identified. Oryza sativa L. 'Nipponbare' seeds were imbibed for 3 days. The seeds were irradiated with 22.5 or 50 keV/Î¼m C-ion or 63 or 80 keV/Î¼m Ne-ion at a dose of 15 Gy. Gene expressions of irradiated and unirradiated embryos were measured at 2 hours after irradiation. Three independent experiments were performed at each time and LET.

2016-07-01 | E-GEOD-78994 | biostudies-arrayexpress

Mass spectrometry data of the ERα-NTD samples exposed to 0-50ms x-ray beam

Project description:Here we present MS data of ERα-NTD protein samples exposed to 0-50 ms of X-ray beam at the Advanced Light Source (Berkeley, CA). Irradiated protein samples were digested with two sets of proteases, Asp-N and Lys-C, and pepsin. LC-MS/MS data was utilized to identify 16 sites of modification listed in table S3. LC-MS data were used to quantify the extent of oxidative modifications for these 16 residues. Quantification of oxidative modification for all sites has been done manually.

2020-05-26 | PXD011361 | Pride

Dynamic panoramic presentation of skin function after fractional CO2 laser treatment

Project description:Fractional CO2 laser, as a typical ablative laser, has been used to assist in the treatment of many skin diseases, such as photoaging, atrophic scar, hypertrophic scar, superficial pigmentation, vitiligo, and so on. However, the dynamic changes in skin function after fractional CO2 laser treatment are still unclear. This study explored the changes in local skin function and possible regulatory mechanisms after fractional CO2 laser treatment for 1, 3, 5 and 7 days through transcriptome high-throughput sequencing. The results showed that fractional CO2 laser tended to transform the “lesions” into “normal skin”, regulate the skin barrier, coordinate the rearrangement of collagen, enhance the local microvascular circulation, activate the immune system to secrete a large number of cytokines, and act as an auxiliary tool to assist drug transport. According to the basic principle of destruction before reconstruction, fractional CO2 laser plays a key role of balancer in skin reconstruction. In conclusion, the gene expression profiles of fractional CO2 laser-treated skin undergo dynamic changes over time. Skin barrier, collagen arrangement, drug metabolism, immune system and skin defense system all present obvious characteristics of timing change after fractional CO2 laser treatment.

2023-06-17 | GSE234691 | GEO

Nitrogen-ion-beam implantation effect on rice dry seeds

2012-03-01 | GSE36152 | GEO

Nitrogen-ion-beam implantation effect on rice dry seeds

Project description:Analysis of 96-hours-old-rice seedlings with promoted-growth induced by implantation with low-energy nitrogen ion beam. Ion-beam implantation can induce changes in 351 up-regulated transcripts and 470 down-regulated transcripts, including signaling proteins, kinases, plant hormones, transposable elements, transcription factors, non-coding protein RNAs, secondary metabolites, resistance proteins, peroxidase, chromatin modification and even miRNAs. Results provide insight into the molecular basis of biological effects of plants that implanted by ion beam. Three sample groups—the controls, the ion-beam implanted samples and vacuum-treated samples. Three replicates were included in each sample group. Radiation induced gene expression rice seedlings was measured at 96 hours after germination of the seeds.

2012-03-01 | E-GEOD-36152 | biostudies-arrayexpress

Transcriptomic Analysis of Wound Healing and Skin Rejuvenation Following Ablative Fractional Laser Treatment of Human Skin

Project description:Ablative fractional laser treatment is considered the gold standard for skin rejuvenation. In order to understand how fractional laser works to rejuvenate skin, we performed microarray profiling on skin biopsies to identify temporal and dose-response changes in gene expression following fractional laser treatment.

2021-11-07 | GSE168760 | GEO

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